Acidobacteria Actinobacteria Alphaproteobacteria
Aquificae Bacteroidetes/Chlorobi Betaproteobacteria
Chlamydiae/Verrucomicrobia Chloroflexi Cyanobacteria
Deinococcus-Thermus Deltaproteobacteria Epsilonproteobacteria
Firmicutes Fusobacteria Gammaproteobacteria
Other Bacteria Planctomycetes Spirochaetes
Thermotogae
Classification of phyla is from NCBI page
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4 accessions found for   

Data for CP000891  

Available Atlases
Other Plots
hmmsearch - search a sequence database with a profile HMM
HMMER 2.3.2 (Oct 2003)
Copyright (C) 1992-2003 HHMI/Washington University School of Medicine
Freely distributed under the GNU General Public License (GPL)
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HMM file: /home/projects/MicrobialGenomicsGroup/Packages/hmmdata-1.0.0.package/Resources/noarch/TCS/HisKA_3.hmm [HisKA_3]
Sequence database: CP000891.Gprot.fsa
per-sequence score cutoff: >= 30.1 [TC1]
per-domain score cutoff: >= 30.1 [TC2]
per-sequence Eval cutoff: [none]
per-domain Eval cutoff: [none]
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Query HMM: HisKA_3
Accession: PF07730.2
Description: Histidine kinase
[HMM has been calibrated; E-values are empirical estimates]

Scores for complete sequences (score includes all domains):
Sequence Description Score E-value N
-------- ----------- ----- ------- ---
CP000891_0352 CDS_401236-400157 75.9 5e-22 1
CP000891_1313 CDS_1569874-1568711 65.9 4.3e-19 1
CP000891_3813 CDS_4515964-4517799 62.3 5e-18 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000891_0352 1/1 171 239 .. 1 70 [] 75.9 5e-22
CP000891_1313 1/1 189 254 .. 1 70 [] 65.9 4.3e-19
CP000891_3813 1/1 369 438 .. 1 70 [] 62.3 5e-18

Alignments of top-scoring domains:
CP000891_0352: domain 1 of 1, from 171 to 239: score 75.9, E = 5e-22
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpe.earealde
ER+RIAR+LHD g+sLs+i+l++ela++ll +k + a +l e
CP000891_0 171 ERERIARDLHDIMGHSLSSIALKAELAEKLL--AKQEYqLATIQLNE 215

irelarealaevRrllgdLRpaal<-*
+ ++are+l+++R++++d+++ +l
CP000891_0 216 LGQIARESLSQIRHTVSDYKHKGL 239

CP000891_1313: domain 1 of 1, from 189 to 254: score 65.9, E = 4.3e-19
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ER RI+R+LHD +g++L+a++lqle++ +k+pe ++ ++ +
CP000891_1 189 ERLRISRDLHDILGHQLTALSLQLEVLS-----HKAPEDLKPQVNQS 230

relarealaevRrllgdLR.paal<-*
+ la+e l+ +R+++++ R +l
CP000891_1 231 KSLAKELLESIRAVVRAQRvQVGL 254

CP000891_3813: domain 1 of 1, from 369 to 438: score 62.3, E = 5e-18
*->ERaRIARELHDsvgQsLsaiklqlelarrllds..dkdpeeareald
ER IARELHDs+gQ Ls +k+q++l+r+ ld + +++ ++++l+
CP000891_3 369 ERGVIARELHDSLGQVLSFLKIQISLLRKNLDCscRSP--IVEAQLT 413

eirelarealaevRrllgdLRpaal<-*
ei e +++a+ ++R+ll+++R ++
CP000891_3 414 EINEGVSTAYVQLRELLSTFRLTIK 438


Histogram of all scores:
score obs exp (one = represents 16 sequences)
----- --- ---
-14 21 0|==
-13 118 0|========
-12 222 50|===*==========
-11 294 412|=================== *
-10 806 956|=================================================== *
-9 897 1086|========================================================= *
-8 714 837|============================================= *
-7 513 526|================================*
-6 332 297|==================*==
-5 274 159|=========*========
-4 118 83|=====*==
-3 81 42|==*===
-2 45 21|=*=
-1 29 11|*=
0 16 5|*
1 6 2|*
2 6 1|*
3 2 0|=
4 1 0|=
> 5 4 -|=


% Statistical details of theoretical EVD fit:
mu = -8.7900
lambda = 0.6787
chi-sq statistic = 901.4847
P(chi-square) = 0

Total sequences searched: 4499

Whole sequence top hits:
tophits_s report:
Total hits: 3
Satisfying E cutoff: 3
Total memory: 20K

Domain top hits:
tophits_s report:
Total hits: 3
Satisfying E cutoff: 3
Total memory: 21K


Acknowledgements:

This research is funded by:

Developed by: